Sequence
atgc intronic sequence ATGC exonic sequenceAGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17060.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os02g47110.1 (Oryza sativa), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttat---cctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTACAGTACAAGAACGTGATGTTTACAGTATGGGATGTCGGTGGCCAAGAGAAGTTGAGGCCTCTGTGGAGGCATTACTTCAATAATACGGATGGTTTGgtatgtttt--gtttcctttgtggttatctttttggg---aatacgtga-----aagatttgtgcatcgttgcattaaagaaggaaagaagtggttatttgattttgaca------------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os10g42940.1 (Oryza sativa), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAATACAAGAATGTGGTGTTCACTGTGTGGGATGTTGGTGGCCAGGAAAAATTGAGGCCCTTATGGAGGCACTACTTCAACAACACCGATGCTCTGgtcactctttttttcccctcttcttttatccagcggcatagggaaacatttcttacacataacgtacctcc---tttgaacaagcaattcactttgtgacttt----------------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G106795_T03 (Zea mays), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAATACAAGAATGTGATGTTTACTGTTTGGGATGTTGGTGGCCAAGAAAAGTTGAGGCCCTTGTGGAGGCACTACTTCAACAATACTGATGGCTTGgtatgtttattattcttttaa-gaccttta--tgaaat--gatatcgattgtttgtaattgttctgctt----gacgggttgggttatttattcttcacttcttgagtt----------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G113995_T01 (Zea mays), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAATACAAGAATGTGATGTTTACTGTGTGGGATGTTGGTGGCCAAGAAAAGTTGAGGCCCTTGTGGAGGCACTACTTCAACAATACTGATGGCTTGgtatgt------tttattgctaaaat---gatattgatctg-tactctactttgtaattgttctgcttgatgagttgggttac-ttatgtttgtcttggtgagtttatggg--------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GRMZM2G011518_T01 (Zea mays), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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GGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAACAACACTGATGCTCTGgt-cat---tactctcgtttctgtttcacaagtgaagcggcataaattctattcaaagttga---aattttacatagaagtgt-ttatgctgtaat-gtttcttccact----------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G43910.2 (Glycine max), 5'ss of exon 4
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctt-tatcgaccatggtataag-actactctatgatgctcttgcag
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AGTTCAGTATAAGAATGTTATTTTCACAGTCTGGGATGTTGGAGGACAAGAGAAACTAAGGCCACTTTGGAGGCACTACTTTGACAACACAGATGGCCTGgtgagaat-taattttcat---gcttttatctcggtgaaagaaaagttatgtt-aagctggtt--gtttttttattaaaaaaaatt-tcct-tctttcaccatcattaatcagtccagta-gaggcctggaaagaa---aggtctacatgcataaggtagcaaggttgatatatttgttgacgtgtg-cacttatgcag
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G01380.2 (Glycine max), 5'ss of exon 4
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAGTATAAAAATGTTATTTTCACAGTTTGGGATGTTGGAGGACAAGAGAAACTAAGGCCACTTTGGAGGCACTATTTTAACAACACAGATGGCCTGgtgagaat-tagttttcatgcc----ttttatctcggtgaaagaaaagttatgctgagcttgttgtttttcgaaaagttccttctttctccatatcattaatcagtccagtaggctggaaagaaaggtctacaggcacaaggtagcaaggttgatatatttgttgatgtgtgcatttatgcag--------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA11G09790.3 (Glycine max), 5'ss of exon 2
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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GGTTCAGTATAAGAATGTTGTTTTCACGGTTTGGGATGTTGGAGGGCAAGAGAAATTAAGGGCACTTTGGAGGCACTATTTTAACAATACTGATGGTTTGgtaagaat-tagtttccattat--ttattgggttttatct--taatgaaaacacaa--cttctgcaattcggtatcttgtggagttttcct----tctattacaaaatcat----tcatctgtccaatag--aactgaaaagacatgatacagatctgtagttgccaggttgatacatatgtgc-atatttatgcag
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA12G02110.1 (Glycine max), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtt---tttttttcgatttttgctttcagtcagatacttaactttcaaggttt--ttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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GGTTCAGTATAAGAATGTTGTTTTCACGGTTTGGGATGTTGGAGGGCAAGAGAAATTAAGGGCACTTTGGAGGCACTATTTTAACAACACTGATGGTTTGgtaagaatgagtttccattatttgttgtgttttatcttaatgaaa-acacaacttctgcaatttggtatcttgtaaagttttccgtctattacaaaatcattcatcac-atgttacagatctata-gttgccaggttgatacatatgtgcatatttatgcag----------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv16s0039g02240.t01 (Vitis vinifera), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatga-tgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAGTATAAGAACGTGATGTTCACAGTGTGGGATGTAGGTGGACAAGAGAAACTCAGGCCACTCTGGAGGCATTACTTTAATAATACTGATGGACTGgtaatcat-tactttttatagccatatttgttc-------ggtaattg-ttattagggtcagtttcattttattttaagttaccgttctctttgtataattctaaatgt-----------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S91_59V6.1 (Physcomitrella patens), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatg-atgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAATACAAGAATGTCGAGTTCACAGTATGGGATGTTGGAGGTCAGGAGAAATTGCGGCCCCTTTGGCGGCATTACTTCAATAATACTGACGGTTTGgtaagtat------tctttataggttgctg-tttcagt-agac-ctttttttctttttttcatacaactttttat-gatatatatatatatatatatatatatatatata----------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S47_298V6.1 (Physcomitrella patens), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAGTACAAGAACGTCGAGTTTACAGTGTGGGATGTTGGAGGTCAAGAGAAATTGCGGCCTCTGTGGCGGCATTATTTCAACAACACTGATGGTTTGgtaaat------tatcttcattggatatcatctc---tcaagtaatcatcattgtatgg------atattaattttactatagattgttgtgagcacaattctaacgctagatta----------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: PP1S37_304V6.1 (Physcomitrella patens), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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AGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAACAACACTGACGGTTTGgtaaattc-----tcttcacttgatattcccttacaagcag---------tatcatctttattgatactgagaaggagaatacatcgtgatacatttt-tattgatgccg--atatt--------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ24533 (Selaginella moellendorffii), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggttt-ttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
|| ||||||||||||||| ||||||| || ||||||||||||||||| ||||| || ||||| || |||| ||| ||||| | | || |||| || |||| | ||| ||| ||| |||| ||||| || | | | |||| | ||||
GGTCCAGTACAAGAATGTGGTGTTCACGGTGTGGGATGTTGGTGGCCAGGAGAAGCTAAGACCGCTCTGGAAGCACTACTTTAGCAGCACCGATGCTCTGgtactgttttagatttccttt-----tttgttttcaatcg------tgatctacaagacgtgctccag----------------------------------------------------------------------------------------------------------------------------------
upper sequence: AT5G17060.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: EFJ08154 (Selaginella moellendorffii), 5'ss of exon 3
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatag-tttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
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GGTCCAGTACAAGAATGTGGTGTTCACGGTGTGGGATGTGGGTGGCCAGGAGAAGCTAAGACCGCTCTGGAAGCACTACTTTAGCAGCACCGATGCTCTGgtactgttttagatttccttctttgttttcgattgtgatctacaagacgtgctccag---------------------------------------------------------------------------------------------------------------------------------------------Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164089976|gb|ES136104.1|ES136104EST: TAATACTGATGGACTT ATATACGTGGTGGATTCCTTAGATCGAGAGAGGATCGGGAAAGCAAAGCAA
genomic: TAATACTGATGGACTTgtacgtatat ... gctcttgcagATATACGTGGTGGATTCCTTAGATCGAGAGAGGATCGGGAAAGCAAAGCAA
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAATAATACTGATGGACTTgtacgtatatagtttttttttcgatttttgctttcagtcagatacttaactttcaaggtttttccatctctatgttggcatatgttatcctatatttggttatgatgttgcagtatcatatgttgcttggccaatctttagatctttttccatctttatcgaccatggtataagactactctatgatgctcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA